Tissue Specific Analysis of Alternative Splicing Events
Alternative splicing is an important mechanism in regulating gene expression and gen-erating protein diversity.Studies have shown that single nucleotide variations can affect alternative splicing of genes.Based on the RNA-seq data derived from 23 tissues of a 51-year-old female,the datasets of alternative splicing events on alternative 5'splice site(A5SS)and alternative 3'splice site(A3SS)patterns were constructed using MISO.In addition,the dataset of single nucleotide vari-ation(SNV_Set)was constructed using Varscan 2.Then,we analyzed the distance distribution be-tween two alternative splicing sites and the distribution of SNVs near splice sites.Based on one-hot encoding of upstream and downstream sequence,we calculated splicing probability p of potential splicing sites to identify true alternative splicing sites in 100 bp and 700 bp regions.Finally,the cor-relation between splicing probability p and percent-spliced-in Ψ were analyzed.The results indicated that different splicing events are common in genes across different tissues.The true splicing sites can be identified according to the context sequence at splice sites.Furthermore,the weak correla-tions between Ψ and p and between Δ Ψ and Δp indicated that when SNVs occur near splice site,it is difficult to determine the selection of alternative splicing sites in different tissues only according to sequence information.
alternative splicingsingle nucleotide variationcorrelation
万方数据
维普
